Schema for xenoRefSeqAli
  Database: danRer10    Primary Table: xenoRefSeqAli    Row Count: 139,228   Data last updated: 2020-08-18
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 585smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 350int(10) unsigned range Number of bases that match that aren't repeats
misMatches 109int(10) unsigned range Number of bases that don't match
repMatches 0int(10) unsigned range Number of bases that match but are part of repeats
nCount 0int(10) unsigned range Number of 'N' bases
qNumInsert 1int(10) unsigned range Number of inserts in query
qBaseInsert 15int(10) unsigned range Number of bases inserted in query
tNumInsert 4int(10) unsigned range Number of inserts in target
tBaseInsert 4492int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001292423varchar(255) values Query sequence name
qSize 541int(10) unsigned range Query sequence size
qStart 31int(10) unsigned range Alignment start position in query
qEnd 505int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 58871917int(10) unsigned range Target sequence size
tStart 6673int(10) unsigned range Alignment start position in target
tEnd 11624int(10) unsigned range Alignment end position in target
blockCount 5int(10) unsigned range Number of blocks in alignment
blockSizes 75,111,137,49,87,longblob   Size of each block
qStarts 31,106,217,354,418,longblob   Start of each block in query.
tStarts 58860293,58861726,58862223,...longblob   Start of each block in target.

Connected Tables and Joining Fields
        danRer10.all_est.qName (via xenoRefSeqAli.qName)
      danRer10.all_mrna.qName (via xenoRefSeqAli.qName)
      danRer10.refGene.name (via xenoRefSeqAli.qName)
      danRer10.refSeqAli.qName (via xenoRefSeqAli.qName)
      danRer10.xenoMrna.qName (via xenoRefSeqAli.qName)
      danRer10.xenoRefFlat.name (via xenoRefSeqAli.qName)
      danRer10.xenoRefGene.name (via xenoRefSeqAli.qName)
      hgFixed.gbCdnaInfo.acc (via xenoRefSeqAli.qName)
      hgFixed.gbMiscDiff.acc (via xenoRefSeqAli.qName)
      hgFixed.gbSeq.acc (via xenoRefSeqAli.qName)
      hgFixed.gbWarn.acc (via xenoRefSeqAli.qName)
      hgFixed.imageClone.acc (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
5853501090011544492+-NM_00129242354131505chr158871917667311624575,111,137,49,87,31,106,217,354,418,58860293,58861726,58862223,58864962,58865157,
5852731110027544558+-NM_001298966122644503chr158871917667611618569,3,102,135,75,44,113,116,224,428,58860299,58860474,58861729,58862223,58865166,
5852731110027544558+-NM_00129896782983542chr158871917667611618569,3,102,135,75,83,152,155,263,467,58860299,58860474,58861729,58862223,58865166,
5852731110027544558+-NM_13580579044503chr158871917667611618569,3,102,135,75,44,113,116,224,428,58860299,58860474,58861729,58862223,58865166,
5853471030012144498+-NM_00126596856444515chr158871917667611624575,110,138,43,84,44,119,229,367,431,58860293,58861726,58862222,58864962,58865157,
585352950011544498+-NM_00101704153410472chr158871917667911624575,111,133,47,81,10,85,196,329,391,58860293,58861726,58862223,58864958,58865157,
5853421050012144498+-NM_00112884154321489chr158871917667911624575,110,138,43,81,21,96,206,344,408,58860293,58861726,58862222,58864962,58865157,
58538880000044477+-NM_00120012152615483chr158871917667911624575,111,137,64,81,15,90,201,338,402,58860293,58861726,58862223,58864962,58865157,
585355920012144498+-NM_00124564455830498chr158871917667911624575,111,133,47,81,30,105,216,349,417,58860293,58861726,58862223,58864958,58865157,
5853451020012144498+-NM_00130486650921489chr158871917667911624575,110,138,43,81,21,96,206,344,408,58860293,58861726,58862222,58864962,58865157,

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.